Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

Filtered green description Value Type Rank network_comparison Gene Interaction Map red Network Comparison Type

Results: HTML CSV LaTeX

Showing element 3180 to 3229 of 38536 in total

Filtered	0
Network Comparison Type	Divided

green	description	Value Type	Rank	network_comparison	Interaction Map	red	
2804	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [source:sptrembl;acc:q9uge0]	Measured	69	1.7602	High confidence	1593	
2804	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [source:sptrembl;acc:q9uge0]	Measured	77	1.7602	Low confidence	1593	
2814.85	phosphoinositide-3-kinase, regulatory subunit 4, p150; phosphatidylinositol 3-kinase-associated p150. [source:refseq;acc:nm_014602]	Measured	500	1.05986	Low confidence	2983.35	
2821.67	candidate tumor suppressor protein. [source:refseq;acc:nm_020381]	Measured	153	1.26419	Low confidence	2232	
2821.67	supervillin isoform 1; membrane-associated f-actin binding protein p205; archvillin. [source:refseq;acc:nm_003174]	Measured	154	1.26419	Low confidence	2232	
2827.2	importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [source:swissprot;acc:p52292]	Measured	719	1.01529	Low confidence	2784.62	
2833.94	transcription factor cp2; transcription factor cp2, alpha globin. [source:refseq;acc:nm_005653]	Measured	311	1.09994	High confidence	3117.17	
2837.1	dyskerin (nucleolar protein nap57) (cbf5 homolog). [source:swissprot;acc:o60832]	Measured	510	1.05861	Low confidence	2680.03	
2837.61	brain protein 16. [source:refseq;acc:nm_016458]	Measured	512	1.05818	Low confidence	3002.7	
2853.65	3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362]	Measured	438	1.0252	High confidence	2925.57	
2855.83	keratin associated protein 9.2. [source:refseq;acc:nm_031961]	Squared	747	1.01872	Low confidence	2909.3	
2856.96	keratin associated protein 1.5. [source:refseq;acc:nm_031957]	Squared	753	1.0185	Low confidence	2909.82	
2856.96	keratin associated protein 2-4; keratin associated protein 2.4. [source:refseq;acc:nm_033184]	Squared	752	1.0185	Low confidence	2909.82	
2856.96	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [source:swissprot;acc:p26371]	Squared	754	1.0185	Low confidence	2909.82	
2856.97	keratin associated protein 1-3; keratin associated protein 1.3. [source:refseq;acc:nm_030966]	Squared	755	1.0185	Low confidence	2909.82	
2856.97	keratin associated protein 4-10; keratin associated protein 4.10. [source:refseq;acc:nm_033060]	Squared	750	1.0185	Low confidence	2909.83	
2856.97	keratin associated protein 4.3 (fragment). [source:sptrembl;acc:q9byr4]	Squared	751	1.0185	Low confidence	2909.82	
2857	keratin associated protein 4-12; keratin associated protein 4.12. [source:refseq;acc:nm_031854]	Squared	759	1.01849	Low confidence	2909.84	
2857	keratin associated protein 4-14; keratin associated protein 4.14. [source:refseq;acc:nm_033059]	Squared	757	1.01849	Low confidence	2909.84	
2857	keratin associated protein 4.9 (fragment). [source:sptrembl;acc:q9byq8]	Squared	758	1.01849	Low confidence	2909.84	
2857.01	similar to peptidylprolyl isomerase a (cyclophilin a); cyclophilin-lc; cyclophilin homolog overexpressed in liver cancer; chromosome 1 amplified sequence 2. [source:refseq;acc:nm_178230]	Squared	756	1.01849	Low confidence	2909.84	
2857.01	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [source:swissprot;acc:p59095]	Squared	760	1.01849	Low confidence	2909.84	
2858.29	keratin associated protein 9-4; keratin associated protein 9.4. [source:refseq;acc:nm_033191]	Squared	761	1.01824	Low confidence	2910.43	
2860.17	mitogen-activated protein kinase kinase kinase 3 (ec 2.7.1.-) (mapk/erk kinase kinase 3) (mek kinase 3) (mekk 3). [source:swissprot;acc:q99759]	Measured	595	1.03791	Low confidence	2968.59	
2863.29	polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [source:refseq;acc:nm_138393]	Squared	246	1.23762	Low confidence	3543.66	
2864.68	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [source:swissprot;acc:q16719]	Measured	373	1.05571	High confidence	2713.5	
2864.71	dynactin 1 (150 kda dynein-associated polypeptide) (dp-150) (dap-150) (p150-glued) (p135). [source:swissprot;acc:q14203]	Squared	310	1.16602	Low confidence	2456.82	
2869.96	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [source:swissprot;acc:p24298]	Squared	374	1.11579	High confidence	2572.14	
2873.96	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [source:swissprot;acc:o75185]	Squared	491	1.00101	High confidence	2871.07	
2876	protein cgi-140 (protein ptd008) (my006 protein). [source:swissprot;acc:q9y284]	Ranked	448	1.02191	High confidence	2939	
2876	protein cgi-140 (protein ptd008) (my006 protein). [source:swissprot;acc:q9y284]	Ranked	674	1.02191	Low confidence	2939	
2876.19	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [source:refseq;acc:nm_017892]	Measured	552	1.05232	Low confidence	2733.19	
2877.82	huntingtin-interacting protein hypa/fbp11 (fragment). [source:sptrembl;acc:o75404]	Measured	549	1.05288	Low confidence	2733.29	
2879.55	40s ribosomal protein s3a. [source:swissprot;acc:p49241]	Measured	447	1.01735	High confidence	2929.51	
2887.65	protein cgi-147. [source:swissprot;acc:q9y3e5]	Measured	747	1.01275	Low confidence	2851.31	
2888.82	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [source:swissprot;acc:p51513]	Squared	239	1.25767	Low confidence	3633.18	
2896.88	huntingtin interacting protein c. [source:refseq;acc:nm_012272]	Measured	565	1.05011	Low confidence	2758.64	
2923.92	60s ribosomal protein l39. [source:swissprot;acc:p02404]	Measured	412	1.03449	High confidence	3024.78	
2924.8	peroxisomal 3,2-trans-enoyl-coa isomerase (ec 5.3.3.8) (dodecenoyl-coa delta-isomerase) (d3,d2-enoyl-coa isomerase) (dbi-related protein 1) (drs-1) (hepatocellular carcinoma-associated antigen 88). [source:swissprot;acc:o75521]	Measured	334	1.0808	High confidence	3161.12	
2941.38	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [source:swissprot;acc:p17735]	Measured	739	1.01321	Low confidence	2980.23	
2942.86	beta tubulin 1, class vi. [source:refseq;acc:nm_030773]	Measured	453	1.07815	Low confidence	3172.85	
2947.56	ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [source:swissprot;acc:p31930]	Measured	766	1.01073	Low confidence	2916.26	
2957.12	sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [source:swissprot;acc:p50993]	Measured	264	1.12829	High confidence	3336.48	
2987.56	60s ribosomal protein l17 (l23). [source:swissprot;acc:p18621]	Measured	422	1.08935	Low confidence	2742.51	
2993	acrc protein; putative nuclear protein. [source:refseq;acc:nm_052957]	Squared	353	1.13404	Low confidence	3394.17	
2998.91	tubulin beta-4q chain. [source:swissprot;acc:q99867]	Measured	455	1.07792	Low confidence	3232.58	
3003.92	ebna-2 co-activator (100kd). [source:refseq;acc:nm_014390]	Squared	312	1.16417	Low confidence	2580.3	
3010.22	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [source:sptrembl;acc:q9h5a9]	Measured	285	1.11547	High confidence	2698.62	
3022.35	dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [source:sptrembl;acc:q9nq03]	Squared	832	1.00108	Low confidence	3025.6	
3025.5	tera protein. [source:refseq;acc:nm_021238]	Squared	781	1.01344	Low confidence	3066.15	

Legend:
- Rank is the rank after comparing the two networks
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.

- http://analysis.yellowcouch.org/